metadata: run_metadata: 291 rows where experiment.library_layout = "SINGLE", experiment.library_selection = "cDNA" and experiment.platform = "DNBSEQ"

291 rows where experiment.library_layout = "SINGLE", experiment.library_selection = "cDNA" and experiment.platform = "DNBSEQ"

descending

Link	rowid ▼	run.accession	experiment.accession	sample.accession	study.accession	bioproject	study.title	study.alias	study.type	study.abstract	study.attributes	study.PMIDs	sample.title	sample.alias	sample.attributes	GEOsample.title	GEOsample.dataprocessing	GEOsample.source	GEOsample.extractprotocol	GEOsample.characteristics	GEOsample.accession	experiment.title	experiment.alias	experiment.library_name	experiment.design_description	experiment.library_construction_protocol	experiment.library_strategy	experiment.library_source	experiment.library_selection	experiment.library_layout	experiment.platform	experiment.instrument_model	experiment.study_ref	run.filename	run.semantic_name	run.total_bases	run.total_spots	run.alias	run.read_lengths	run.base_counts	run.r1_length	run.r2_length	run.Acount	run.Ccount	run.Gcount	run.Tcount	run.Ncount	run.experiment	run.pool_member	submission.accession	submission.srasource	submission.bioprojectsource	seqdetective.n_mates	seqdetective.mapping_rate.mate1	seqdetective.nofeature_rate.mate1	seqdetective.sparsity.mate1	seqdetective.pos_strand_rate.mate1	seqdetective.readlen.mate1	seqdetective.judgement.mate1	seqdetective.judgement.reason	platform_family	instrument_generation	read_bias	selection_class	prep_kit	sc_or_bulk	tech_class	technology	submission.bioprojectsource.country	earliest_date	devstage_curation	devstage_curation_coarse	tissue_curation	tissue_curation_coarse
69051	69051	SRR18432286	SRX14566130	SRS12343128	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL16	GSM5965364	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL16	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5965364	GSM5965364: Micorwell seq datasets of Zebrafish 22m COL16; Danio rerio; RNA Seq	GSM5965364 r1	GSM5965364	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL16_1_2.fq.gz Zebrafish_22m_COL16_1_1.fq.gz	fastq fastq	5552134200.0	37014228.0	GSM5965364 r1	0:150 1:150	A:1636845386;C:1022282341;G:1050955671;T:1840072791;N:1978011	150	150	1636845386	1022282341	1050955671	1840072791	1978011	SRX14566130	SRS12343128	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.35479	0.01916	0.9027	0.32422	150	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-22	Adult	Adult	Whole Organism	All anatomical structures
69052	69052	SRR19368199	SRX14566130	SRS12343128	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL16	GSM5965364	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL16	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5965364	GSM5965364: Micorwell seq datasets of Zebrafish 22m COL16; Danio rerio; RNA Seq	GSM5965364 r1	GSM5965364	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL16_2_2.fq.gz Zebrafish_22m_COL16_2_1.fq.gz	fastq fastq	20024400906.0	155227914.0	GSM5965364 r2	0:108 1:150	A:5865242054;C:4019481498;G:4311025389;T:5800102838;N:28549127	108	150	5865242054	4019481498	4311025389	5800102838	28549127	SRX14566130	SRS12343128	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.40431	0.02236	0.93072	0.32634	108	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-22	Adult	Adult	Whole Organism	All anatomical structures
69053	69053	SRR19600339	SRX14566130	SRS12343128	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL16	GSM5965364	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL16	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5965364	GSM5965364: Micorwell seq datasets of Zebrafish 22m COL16; Danio rerio; RNA Seq	GSM5965364 r1	GSM5965364	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL16_3_1.fq.gz Zebrafish_22m_COL16_3_2.fq.gz	fastq fastq	12494363190.0	143613370.0	GSM5965364 r3	0:24 1:150	A:4260245103;C:2479681600;G:2487270882;T:3219352443;N:47813162	24	150	4260245103	2479681600	2487270882	3219352443	47813162	SRX14566130	SRS12343128	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.35862	0.01881	0.92533	0.31978	24	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-22	Adult	Adult	Whole Organism	All anatomical structures
69054	69054	SRR20230002	SRX14566130	SRS12343128	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL16	GSM5965364	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL16	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5965364	GSM5965364: Micorwell seq datasets of Zebrafish 22m COL16; Danio rerio; RNA Seq	GSM5965364 r1	GSM5965364	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL16_4_2.fq.gz Zebrafish_22m_COL16_4_1.fq.gz	fastq fastq	12056306010.0	138578230.0	GSM5965364 r4	0:24 1:150	A:4104157347;C:2392920312;G:2417101695;T:3111018454;N:31108202	24	150	4104157347	2392920312	2417101695	3111018454	31108202	SRX14566130	SRS12343128	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.37092	0.01949	0.92285	0.32523	24	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-22	Adult	Adult	Whole Organism	All anatomical structures
69055	69055	SRR18432287	SRX14566129	SRS12343126	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL15	GSM5965363	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL15	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5965363	GSM5965363: Micorwell seq datasets of Zebrafish 22m COL15; Danio rerio; RNA Seq	GSM5965363 r1	GSM5965363	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL15_1_1.fq.gz Zebrafish_22m_COL15_1_2.fq.gz	fastq fastq	6123756000.0	40825040.0	GSM5965363 r1	0:150 1:150	A:1827542171;C:1117092612;G:1145436206;T:2031519720;N:2165291	150	150	1827542171	1117092612	1145436206	2031519720	2165291	SRX14566129	SRS12343126	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.33851	0.01733	0.90851	0.34471	150	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-22	Adult	Adult	Whole Organism	All anatomical structures
69056	69056	SRR19368198	SRX14566129	SRS12343126	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL15	GSM5965363	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL15	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5965363	GSM5965363: Micorwell seq datasets of Zebrafish 22m COL15; Danio rerio; RNA Seq	GSM5965363 r1	GSM5965363	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL15_2_1.fq.gz Zebrafish_22m_COL15_2_2.fq.gz	fastq fastq	20251659174.0	156989606.0	GSM5965363 r2	0:108 1:150	A:5997018976;C:4030988839;G:4300184941;T:5894614720;N:28851698	108	150	5997018976	4030988839	4300184941	5894614720	28851698	SRX14566129	SRS12343126	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.39137	0.01731	0.93253	0.34073	108	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-22	Adult	Adult	Whole Organism	All anatomical structures
69057	69057	SRR19600338	SRX14566129	SRS12343126	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL15	GSM5965363	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL15	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5965363	GSM5965363: Micorwell seq datasets of Zebrafish 22m COL15; Danio rerio; RNA Seq	GSM5965363 r1	GSM5965363	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL15_3_1.fq.gz Zebrafish_22m_COL15_3_2.fq.gz	fastq fastq	12521282034.0	143922782.0	GSM5965363 r3	0:24 1:150	A:4315943851;C:2453889901;G:2466547552;T:3236857435;N:48043295	24	150	4315943851	2453889901	2466547552	3236857435	48043295	SRX14566129	SRS12343126	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.35102	0.01618	0.92634	0.34104	24	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-22	Adult	Adult	Whole Organism	All anatomical structures
69058	69058	SRR20230001	SRX14566129	SRS12343126	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL15	GSM5965363	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL15	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5965363	GSM5965363: Micorwell seq datasets of Zebrafish 22m COL15; Danio rerio; RNA Seq	GSM5965363 r1	GSM5965363	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL15_4_1.fq.gz Zebrafish_22m_COL15_4_2.fq.gz	fastq fastq	13802844582.0	158653386.0	GSM5965363 r4	0:24 1:150	A:4749278962;C:2705282723;G:2737988540;T:3575482368;N:34811989	24	150	4749278962	2705282723	2737988540	3575482368	34811989	SRX14566129	SRS12343126	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.36135	0.0166	0.92393	0.33552	24	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-22	Adult	Adult	Whole Organism	All anatomical structures
69059	69059	SRR18432288	SRX14566128	SRS12343127	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL14	GSM5965362	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL14	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5965362	GSM5965362: Micorwell seq datasets of Zebrafish 22m COL14; Danio rerio; RNA Seq	GSM5965362 r1	GSM5965362	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL14_1_1.fq.gz Zebrafish_22m_COL14_1_2.fq.gz	fastq fastq	7937867700.0	52919118.0	GSM5965362 r1	0:150 1:150	A:2347679790;C:1451399869;G:1493066908;T:2642888183;N:2832950	150	150	2347679790	1451399869	1493066908	2642888183	2832950	SRX14566128	SRS12343127	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.35121	0.01702	0.90498	0.34557	150	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-22	Adult	Adult	Whole Organism	All anatomical structures
69060	69060	SRR19368197	SRX14566128	SRS12343127	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL14	GSM5965362	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL14	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5965362	GSM5965362: Micorwell seq datasets of Zebrafish 22m COL14; Danio rerio; RNA Seq	GSM5965362 r1	GSM5965362	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL14_2_1.fq.gz Zebrafish_22m_COL14_2_2.fq.gz	fastq fastq	25651177086.0	198846334.0	GSM5965362 r2	0:108 1:150	A:7546130806;C:5110163809;G:5472375471;T:7485985875;N:36521125	108	150	7546130806	5110163809	5472375471	7485985875	36521125	SRX14566128	SRS12343127	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.3996	0.01837	0.92999	0.34348	108	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-22	Adult	Adult	Whole Organism	All anatomical structures
69061	69061	SRR19600337	SRX14566128	SRS12343127	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL14	GSM5965362	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL14	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5965362	GSM5965362: Micorwell seq datasets of Zebrafish 22m COL14; Danio rerio; RNA Seq	GSM5965362 r1	GSM5965362	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL14_3_1.fq.gz Zebrafish_22m_COL14_3_2.fq.gz	fastq fastq	15639947370.0	179769510.0	GSM5965362 r3	0:24 1:150	A:5301780511;C:3089311667;G:3114099586;T:4075104801;N:59650805	24	150	5301780511	3089311667	3114099586	4075104801	59650805	SRX14566128	SRS12343127	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.36342	0.01616	0.92328	0.34207	24	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-22	Adult	Adult	Whole Organism	All anatomical structures
69062	69062	SRR20230000	SRX14566128	SRS12343127	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL14	GSM5965362	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL14	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5965362	GSM5965362: Micorwell seq datasets of Zebrafish 22m COL14; Danio rerio; RNA Seq	GSM5965362 r1	GSM5965362	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL14_4_1.fq.gz Zebrafish_22m_COL14_4_2.fq.gz	fastq fastq	17288243454.0	198715442.0	GSM5965362 r4	0:24 1:150	A:5860531507;C:3414928706;G:3460319121;T:4511234423;N:41229697	24	150	5860531507	3414928706	3460319121	4511234423	41229697	SRX14566128	SRS12343127	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.36857	0.01762	0.92411	0.33601	24	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-22	Adult	Adult	Whole Organism	All anatomical structures
69063	69063	SRR18432289	SRX14566127	SRS12343125	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL13	GSM5965361	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL13	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5965361	GSM5965361: Micorwell seq datasets of Zebrafish 22m COL13; Danio rerio; RNA Seq	GSM5965361 r1	GSM5965361	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL13_1_1.fq.gz Zebrafish_22m_COL13_1_2.fq.gz	fastq fastq	6723967500.0	44826450.0	GSM5965361 r1	0:150 1:150	A:1980244686;C:1231063602;G:1268605159;T:2241701674;N:2352379	150	150	1980244686	1231063602	1268605159	2241701674	2352379	SRX14566127	SRS12343125	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.34641	0.01727	0.90122	0.35974	150	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-22	Adult	Adult	Whole Organism	All anatomical structures
69064	69064	SRR19368196	SRX14566127	SRS12343125	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL13	GSM5965361	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL13	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5965361	GSM5965361: Micorwell seq datasets of Zebrafish 22m COL13; Danio rerio; RNA Seq	GSM5965361 r1	GSM5965361	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL13_2_1.fq.gz Zebrafish_22m_COL13_2_2.fq.gz	fastq fastq	21719541660.0	168368540.0	GSM5965361 r2	0:108 1:150	A:6351154824;C:4341538719;G:4653736802;T:6341921932;N:31189383	108	150	6351154824	4341538719	4653736802	6341921932	31189383	SRX14566127	SRS12343125	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.38949	0.01781	0.92817	0.35286	108	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-22	Adult	Adult	Whole Organism	All anatomical structures
69065	69065	SRR19600336	SRX14566127	SRS12343125	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL13	GSM5965361	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL13	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5965361	GSM5965361: Micorwell seq datasets of Zebrafish 22m COL13; Danio rerio; RNA Seq	GSM5965361 r1	GSM5965361	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL13_3_1.fq.gz Zebrafish_22m_COL13_3_2.fq.gz	fastq fastq	13392521088.0	153937024.0	GSM5965361 r3	0:24 1:150	A:4517365726;C:2661512352;G:2691459833;T:3471368645;N:50814532	24	150	4517365726	2661512352	2691459833	3471368645	50814532	SRX14566127	SRS12343125	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.35965	0.01616	0.9194	0.36288	24	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-22	Adult	Adult	Whole Organism	All anatomical structures
69066	69066	SRR20229999	SRX14566127	SRS12343125	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL13	GSM5965361	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL13	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5965361	GSM5965361: Micorwell seq datasets of Zebrafish 22m COL13; Danio rerio; RNA Seq	GSM5965361 r1	GSM5965361	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL13_4_1.fq.gz Zebrafish_22m_COL13_4_2.fq.gz	fastq fastq	14625067836.0	168104228.0	GSM5965361 r4	0:24 1:150	A:4925303460;C:2903042925;G:2956946846;T:3805663780;N:34110825	24	150	4925303460	2903042925	2956946846	3805663780	34110825	SRX14566127	SRS12343125	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.36845	0.01714	0.91857	0.35645	24	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-22	Adult	Adult	Whole Organism	All anatomical structures
69067	69067	SRR18432290	SRX14566126	SRS12343124	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL128	GSM5965379	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL128	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5965379	GSM5965379: Micorwell seq datasets of Zebrafish 22m COL128; Danio rerio; RNA Seq	GSM5965379 r1	GSM5965379	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL128_1_1.fq.gz Zebrafish_22m_COL128_1_2.fq.gz	fastq fastq	5789740200.0	38598268.0	GSM5965379 r1	0:150 1:150	A:1701206278;C:1064415425;G:1096082893;T:1925959068;N:2076536	150	150	1701206278	1064415425	1096082893	1925959068	2076536	SRX14566126	SRS12343124	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.3531	0.02196	0.88527	0.39698	150	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-22	Adult	Adult	Whole Organism	All anatomical structures
69068	69068	SRR19574850	SRX14566126	SRS12343124	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL128	GSM5965379	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL128	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5965379	GSM5965379: Micorwell seq datasets of Zebrafish 22m COL128; Danio rerio; RNA Seq	GSM5965379 r1	GSM5965379	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL128_2_2.fq.gz Zebrafish_22m_COL128_2_1.fq.gz	fastq fastq	18260584164.0	141554916.0	GSM5965379 r2	0:108 1:150	A:5285028528;C:3719052801;G:3984275987;T:5245280262;N:26946586	108	150	5285028528	3719052801	3984275987	5245280262	26946586	SRX14566126	SRS12343124	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.41138	0.0237	0.91076	0.4114	108	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-22	Adult	Adult	Whole Organism	All anatomical structures
69069	69069	SRR19600354	SRX14566126	SRS12343124	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL128	GSM5965379	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL128	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5965379	GSM5965379: Micorwell seq datasets of Zebrafish 22m COL128; Danio rerio; RNA Seq	GSM5965379 r1	GSM5965379	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL128_3_1.fq.gz Zebrafish_22m_COL128_3_2.fq.gz	fastq fastq	11491275462.0	132083626.0	GSM5965379 r3	0:24 1:150	A:3804995108;C:2313030118;G:2331738932;T:2997442812;N:44068492	24	150	3804995108	2313030118	2331738932	2997442812	44068492	SRX14566126	SRS12343124	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.37935	0.021	0.90187	0.42088	24	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-22	Adult	Adult	Whole Organism	All anatomical structures
69070	69070	SRR20220081	SRX14566126	SRS12343124	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL128	GSM5965379	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL128	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5965379	GSM5965379: Micorwell seq datasets of Zebrafish 22m COL128; Danio rerio; RNA Seq	GSM5965379 r1	GSM5965379	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL128_4_2.fq.gz Zebrafish_22m_COL128_4_1.fq.gz	fastq fastq	12069048552.0	138724696.0	GSM5965379 r4	0:24 1:150	A:3979468311;C:2428210527;G:2466041386;T:3165030970;N:30297358	24	150	3979468311	2428210527	2466041386	3165030970	30297358	SRX14566126	SRS12343124	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.38971	0.02244	0.9013	0.41727	24	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-22	Adult	Adult	Whole Organism	All anatomical structures
69071	69071	SRR18432291	SRX14566125	SRS12343123	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL127	GSM5965378	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL127	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5965378	GSM5965378: Micorwell seq datasets of Zebrafish 22m COL127; Danio rerio; RNA Seq	GSM5965378 r1	GSM5965378	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL127_1_2.fq.gz Zebrafish_22m_COL127_1_1.fq.gz	fastq fastq	5124860400.0	34165736.0	GSM5965378 r1	0:150 1:150	A:1513961185;C:939406925;G:966814069;T:1702869054;N:1809167	150	150	1513961185	939406925	966814069	1702869054	1809167	SRX14566125	SRS12343123	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.35356	0.02035	0.88976	0.43439	150	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-22	Adult	Adult	Whole Organism	All anatomical structures
69072	69072	SRR19574849	SRX14566125	SRS12343123	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL127	GSM5965378	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL127	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5965378	GSM5965378: Micorwell seq datasets of Zebrafish 22m COL127; Danio rerio; RNA Seq	GSM5965378 r1	GSM5965378	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL127_2_2.fq.gz Zebrafish_22m_COL127_2_1.fq.gz	fastq fastq	15861017238.0	122953622.0	GSM5965378 r2	0:108 1:150	A:4643583257;C:3213962529;G:3423607667;T:4557847117;N:22016668	108	150	4643583257	3213962529	3423607667	4557847117	22016668	SRX14566125	SRS12343123	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.4086	0.02002	0.91311	0.42538	108	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-22	Adult	Adult	Whole Organism	All anatomical structures
69073	69073	SRR19600353	SRX14566125	SRS12343123	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL127	GSM5965378	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL127	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5965378	GSM5965378: Micorwell seq datasets of Zebrafish 22m COL127; Danio rerio; RNA Seq	GSM5965378 r1	GSM5965378	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL127_3_2.fq.gz Zebrafish_22m_COL127_3_1.fq.gz	fastq fastq	10111844004.0	116228092.0	GSM5965378 r3	0:24 1:150	A:3426096949;C:2025276920;G:2033325552;T:2588909029;N:38235554	24	150	3426096949	2025276920	2033325552	2588909029	38235554	SRX14566125	SRS12343123	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.36967	0.01861	0.90826	0.42287	24	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-22	Adult	Adult	Whole Organism	All anatomical structures
69074	69074	SRR20220080	SRX14566125	SRS12343123	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL127	GSM5965378	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL127	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5965378	GSM5965378: Micorwell seq datasets of Zebrafish 22m COL127; Danio rerio; RNA Seq	GSM5965378 r1	GSM5965378	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL127_4_2.fq.gz Zebrafish_22m_COL127_4_1.fq.gz	fastq fastq	10474478100.0	120396300.0	GSM5965378 r4	0:24 1:150	A:3531885021;C:2101499672;G:2125519634;T:2689761823;N:25811950	24	150	3531885021	2101499672	2125519634	2689761823	25811950	SRX14566125	SRS12343123	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.3798	0.01867	0.90636	0.42028	24	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-22	Adult	Adult	Whole Organism	All anatomical structures
69075	69075	SRR18432292	SRX14566124	SRS12343122	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL126	GSM5965377	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL126	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5965377	GSM5965377: Micorwell seq datasets of Zebrafish 22m COL126; Danio rerio; RNA Seq	GSM5965377 r1	GSM5965377	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL126_1_1.fq.gz Zebrafish_22m_COL126_1_2.fq.gz	fastq fastq	7003662300.0	46691082.0	GSM5965377 r1	0:150 1:150	A:2061319597;C:1285353344;G:1326044685;T:2328446534;N:2498140	150	150	2061319597	1285353344	1326044685	2328446534	2498140	SRX14566124	SRS12343122	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.37323	0.02115	0.8788	0.40349	150	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-22	Adult	Adult	Whole Organism	All anatomical structures
69076	69076	SRR19574848	SRX14566124	SRS12343122	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL126	GSM5965377	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL126	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5965377	GSM5965377: Micorwell seq datasets of Zebrafish 22m COL126; Danio rerio; RNA Seq	GSM5965377 r1	GSM5965377	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL126_2_1.fq.gz Zebrafish_22m_COL126_2_2.fq.gz	fastq fastq	21928621248.0	169989312.0	GSM5965377 r2	0:108 1:150	A:6346880159;C:4470144046;G:4792025986;T:6287831916;N:31739141	108	150	6346880159	4470144046	4792025986	6287831916	31739141	SRX14566124	SRS12343122	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.43432	0.02183	0.90575	0.39174	108	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-22	Adult	Adult	Whole Organism	All anatomical structures
69077	69077	SRR19600352	SRX14566124	SRS12343122	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL126	GSM5965377	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL126	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5965377	GSM5965377: Micorwell seq datasets of Zebrafish 22m COL126; Danio rerio; RNA Seq	GSM5965377 r1	GSM5965377	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL126_3_1.fq.gz Zebrafish_22m_COL126_3_2.fq.gz	fastq fastq	14450087868.0	166092964.0	GSM5965377 r3	0:24 1:150	A:4824133345;C:2912799030;G:2934060583;T:3724135564;N:54959346	24	150	4824133345	2912799030	2934060583	3724135564	54959346	SRX14566124	SRS12343122	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.39602	0.01941	0.89769	0.38858	24	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-22	Adult	Adult	Whole Organism	All anatomical structures
69078	69078	SRR20220079	SRX14566124	SRS12343122	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL126	GSM5965377	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL126	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5965377	GSM5965377: Micorwell seq datasets of Zebrafish 22m COL126; Danio rerio; RNA Seq	GSM5965377 r1	GSM5965377	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL126_4_1.fq.gz Zebrafish_22m_COL126_4_2.fq.gz	fastq fastq	14418347832.0	165728136.0	GSM5965377 r4	0:24 1:150	A:4806960323;C:2902055766;G:2940914581;T:3732482781;N:35934381	24	150	4806960323	2902055766	2940914581	3732482781	35934381	SRX14566124	SRS12343122	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.40514	0.02038	0.89913	0.39216	24	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-22	Adult	Adult	Whole Organism	All anatomical structures
69079	69079	SRR18432293	SRX14566123	SRS12343121	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL125	GSM5965376	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL125	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5965376	GSM5965376: Micorwell seq datasets of Zebrafish 22m COL125; Danio rerio; RNA Seq	GSM5965376 r1	GSM5965376	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL125_1_2.fq.gz Zebrafish_22m_COL125_1_1.fq.gz	fastq fastq	7459754700.0	49731698.0	GSM5965376 r1	0:150 1:150	A:2202127456;C:1356920652;G:1395024764;T:2503038567;N:2643261	150	150	2202127456	1356920652	1395024764	2503038567	2643261	SRX14566123	SRS12343121	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.35096	0.02065	0.88473	0.4206	150	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-22	Adult	Adult	Whole Organism	All anatomical structures
69080	69080	SRR19574847	SRX14566123	SRS12343121	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL125	GSM5965376	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL125	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5965376	GSM5965376: Micorwell seq datasets of Zebrafish 22m COL125; Danio rerio; RNA Seq	GSM5965376 r1	GSM5965376	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL125_2_2.fq.gz Zebrafish_22m_COL125_2_1.fq.gz	fastq fastq	23224735332.0	180036708.0	GSM5965376 r2	0:108 1:150	A:6825136740;C:4630631087;G:4922314761;T:6813871375;N:32781369	108	150	6825136740	4630631087	4922314761	6813871375	32781369	SRX14566123	SRS12343121	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.38882	0.01974	0.91648	0.38999	108	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-22	Adult	Adult	Whole Organism	All anatomical structures
69081	69081	SRR19600351	SRX14566123	SRS12343121	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL125	GSM5965376	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL125	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5965376	GSM5965376: Micorwell seq datasets of Zebrafish 22m COL125; Danio rerio; RNA Seq	GSM5965376 r1	GSM5965376	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL125_3_2.fq.gz Zebrafish_22m_COL125_3_1.fq.gz	fastq fastq	14655034638.0	168448674.0	GSM5965376 r3	0:24 1:150	A:5009311509;C:2883440232;G:2900401494;T:3806267923;N:55613480	24	150	5009311509	2883440232	2900401494	3806267923	55613480	SRX14566123	SRS12343121	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.35367	0.01773	0.90938	0.41229	24	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-22	Adult	Adult	Whole Organism	All anatomical structures
69082	69082	SRR20220078	SRX14566123	SRS12343121	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL125	GSM5965376	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL125	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5965376	GSM5965376: Micorwell seq datasets of Zebrafish 22m COL125; Danio rerio; RNA Seq	GSM5965376 r1	GSM5965376	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL125_4_2.fq.gz Zebrafish_22m_COL125_4_1.fq.gz	fastq fastq	16384573932.0	188328436.0	GSM5965376 r4	0:24 1:150	A:5573088586;C:3227582702;G:3281220371;T:4263171568;N:39510705	24	150	5573088586	3227582702	3281220371	4263171568	39510705	SRX14566123	SRS12343121	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.36265	0.0186	0.90713	0.41077	24	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-22	Adult	Adult	Whole Organism	All anatomical structures
69083	69083	SRR18432294	SRX14566122	SRS12343120	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL124	GSM5965375	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL124	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5965375	GSM5965375: Micorwell seq datasets of Zebrafish 22m COL124; Danio rerio; RNA Seq	GSM5965375 r1	GSM5965375	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL124_1_2.fq.gz Zebrafish_22m_COL124_1_1.fq.gz	fastq fastq	6105326700.0	40702178.0	GSM5965375 r1	0:150 1:150	A:1803834538;C:1098189676;G:1136327295;T:2064805156;N:2170035	150	150	1803834538	1098189676	1136327295	2064805156	2170035	SRX14566122	SRS12343120	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.33864	0.02468	0.85947	0.53239	150	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-22	Adult	Adult	Whole Organism	All anatomical structures
69084	69084	SRR19574846	SRX14566122	SRS12343120	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL124	GSM5965375	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL124	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5965375	GSM5965375: Micorwell seq datasets of Zebrafish 22m COL124; Danio rerio; RNA Seq	GSM5965375 r1	GSM5965375	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL124_2_1.fq.gz Zebrafish_22m_COL124_2_2.fq.gz	fastq fastq	18767022684.0	145480796.0	GSM5965375 r2	0:108 1:150	A:5499983693;C:3738268199;G:4008262572;T:5493533720;N:26974500	108	150	5499983693	3738268199	4008262572	5493533720	26974500	SRX14566122	SRS12343120	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.38758	0.02632	0.88793	0.52969	108	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-22	Adult	Adult	Whole Organism	All anatomical structures
69085	69085	SRR19600350	SRX14566122	SRS12343120	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL124	GSM5965375	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL124	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5965375	GSM5965375: Micorwell seq datasets of Zebrafish 22m COL124; Danio rerio; RNA Seq	GSM5965375 r1	GSM5965375	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL124_3_1.fq.gz Zebrafish_22m_COL124_3_2.fq.gz	fastq fastq	11191217334.0	128634682.0	GSM5965375 r3	0:24 1:150	A:3736622449;C:2233397703;G:2263151822;T:2915186080;N:42859280	24	150	3736622449	2233397703	2263151822	2915186080	42859280	SRX14566122	SRS12343120	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.36729	0.02544	0.8744	0.52585	24	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-22	Adult	Adult	Whole Organism	All anatomical structures
69086	69086	SRR20220077	SRX14566122	SRS12343120	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL124	GSM5965375	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL124	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5965375	GSM5965375: Micorwell seq datasets of Zebrafish 22m COL124; Danio rerio; RNA Seq	GSM5965375 r1	GSM5965375	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL124_4_1.fq.gz Zebrafish_22m_COL124_4_2.fq.gz	fastq fastq	12106626636.0	139156628.0	GSM5965375 r4	0:24 1:150	A:4068592712;C:2396243390;G:2451448462;T:3160700967;N:29641105	24	150	4068592712	2396243390	2451448462	3160700967	29641105	SRX14566122	SRS12343120	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.36914	0.02593	0.87426	0.50849	24	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-22	Adult	Adult	Whole Organism	All anatomical structures
69087	69087	SRR18432295	SRX14566121	SRS12343119	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL123	GSM5965374	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL123	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5965374	GSM5965374: Micorwell seq datasets of Zebrafish 22m COL123; Danio rerio; RNA Seq	GSM5965374 r1	GSM5965374	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL123_1_2.fq.gz Zebrafish_22m_COL123_1_1.fq.gz	fastq fastq	7147484700.0	47649898.0	GSM5965374 r1	0:150 1:150	A:2105784861;C:1290305310;G:1328822195;T:2419990741;N:2581593	150	150	2105784861	1290305310	1328822195	2419990741	2581593	SRX14566121	SRS12343119	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.35477	0.0246	0.86354	0.51177	150	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-22	Adult	Adult	Whole Organism	All anatomical structures
69088	69088	SRR19574845	SRX14566121	SRS12343119	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL123	GSM5965374	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL123	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5965374	GSM5965374: Micorwell seq datasets of Zebrafish 22m COL123; Danio rerio; RNA Seq	GSM5965374 r1	GSM5965374	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL123_2_2.fq.gz Zebrafish_22m_COL123_2_1.fq.gz	fastq fastq	22363798620.0	173362780.0	GSM5965374 r2	0:108 1:150	A:6486427621;C:4486668356;G:4799953515;T:6558055329;N:32693799	108	150	6486427621	4486668356	4799953515	6558055329	32693799	SRX14566121	SRS12343119	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.40476	0.0263	0.89388	0.53794	108	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-22	Adult	Adult	Whole Organism	All anatomical structures
69089	69089	SRR19600349	SRX14566121	SRS12343119	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL123	GSM5965374	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL123	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5965374	GSM5965374: Micorwell seq datasets of Zebrafish 22m COL123; Danio rerio; RNA Seq	GSM5965374 r1	GSM5965374	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL123_3_1.fq.gz Zebrafish_22m_COL123_3_2.fq.gz	fastq fastq	13639629450.0	156777350.0	GSM5965374 r3	0:24 1:150	A:4543944737;C:2714426130;G:2729190733;T:3600152053;N:51915797	24	150	4543944737	2714426130	2729190733	3600152053	51915797	SRX14566121	SRS12343119	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.3793	0.02427	0.884	0.53254	24	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-22	Adult	Adult	Whole Organism	All anatomical structures
69090	69090	SRR20220076	SRX14566121	SRS12343119	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL123	GSM5965374	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL123	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5965374	GSM5965374: Micorwell seq datasets of Zebrafish 22m COL123; Danio rerio; RNA Seq	GSM5965374 r1	GSM5965374	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL123_4_1.fq.gz Zebrafish_22m_COL123_4_2.fq.gz	fastq fastq	15615026394.0	179483062.0	GSM5965374 r4	0:24 1:150	A:5186246724;C:3099168670;G:3152397235;T:4139692003;N:37521762	24	150	5186246724	3099168670	3152397235	4139692003	37521762	SRX14566121	SRS12343119	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.38836	0.02406	0.88266	0.50307	24	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-22	Adult	Adult	Whole Organism	All anatomical structures
69091	69091	SRR18432296	SRX14566120	SRS12343118	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL122	GSM5965373	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL122	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5965373	GSM5965373: Micorwell seq datasets of Zebrafish 22m COL122; Danio rerio; RNA Seq	GSM5965373 r1	GSM5965373	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL122_1_1.fq.gz Zebrafish_22m_COL122_1_2.fq.gz	fastq fastq	5025684000.0	33504560.0	GSM5965373 r1	0:150 1:150	A:1490034518;C:901358610;G:931428752;T:1701043337;N:1818783	150	150	1490034518	901358610	931428752	1701043337	1818783	SRX14566120	SRS12343118	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.34203	0.02091	0.87545	0.49317	150	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-22	Adult	Adult	Whole Organism	All anatomical structures
69092	69092	SRR19574844	SRX14566120	SRS12343118	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL122	GSM5965373	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL122	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5965373	GSM5965373: Micorwell seq datasets of Zebrafish 22m COL122; Danio rerio; RNA Seq	GSM5965373 r1	GSM5965373	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL122_2_1.fq.gz Zebrafish_22m_COL122_2_2.fq.gz	fastq fastq	16861560846.0	130709774.0	GSM5965373 r2	0:108 1:150	A:4924721195;C:3349456681;G:3597434151;T:4964936243;N:25012576	108	150	4924721195	3349456681	3597434151	4964936243	25012576	SRX14566120	SRS12343118	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.39315	0.02107	0.90335	0.52604	108	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-22	Adult	Adult	Whole Organism	All anatomical structures
69093	69093	SRR19600348	SRX14566120	SRS12343118	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL122	GSM5965373	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL122	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5965373	GSM5965373: Micorwell seq datasets of Zebrafish 22m COL122; Danio rerio; RNA Seq	GSM5965373 r1	GSM5965373	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL122_3_1.fq.gz Zebrafish_22m_COL122_3_2.fq.gz	fastq fastq	10462565538.0	120259374.0	GSM5965373 r3	0:24 1:150	A:3529681455;C:2077077055;G:2083884916;T:2731589449;N:40332663	24	150	3529681455	2077077055	2083884916	2731589449	40332663	SRX14566120	SRS12343118	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.36935	0.01892	0.89353	0.49567	24	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-22	Adult	Adult	Whole Organism	All anatomical structures
69094	69094	SRR20220075	SRX14566120	SRS12343118	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL122	GSM5965373	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL122	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5965373	GSM5965373: Micorwell seq datasets of Zebrafish 22m COL122; Danio rerio; RNA Seq	GSM5965373 r1	GSM5965373	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL122_4_1.fq.gz Zebrafish_22m_COL122_4_2.fq.gz	fastq fastq	10147432746.0	116637158.0	GSM5965373 r4	0:24 1:150	A:3420445274;C:2012096019;G:2033251161;T:2655437258;N:26203034	24	150	3420445274	2012096019	2033251161	2655437258	26203034	SRX14566120	SRS12343118	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.37912	0.02069	0.89256	0.4814	24	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-22	Adult	Adult	Whole Organism	All anatomical structures
69095	69095	SRR18432297	SRX14566119	SRS12343117	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL121	GSM5965372	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL121	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5965372	GSM5965372: Micorwell seq datasets of Zebrafish 22m COL121; Danio rerio; RNA Seq	GSM5965372 r1	GSM5965372	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL121_1_2.fq.gz Zebrafish_22m_COL121_1_1.fq.gz	fastq fastq	6241509900.0	41610066.0	GSM5965372 r1	0:150 1:150	A:1836883392;C:1125115984;G:1158061131;T:2119242701;N:2206692	150	150	1836883392	1125115984	1158061131	2119242701	2206692	SRX14566119	SRS12343117	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.34767	0.02389	0.86561	0.51404	150	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-22	Adult	Adult	Whole Organism	All anatomical structures
69096	69096	SRR19574843	SRX14566119	SRS12343117	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL121	GSM5965372	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL121	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5965372	GSM5965372: Micorwell seq datasets of Zebrafish 22m COL121; Danio rerio; RNA Seq	GSM5965372 r1	GSM5965372	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL121_2_1.fq.gz Zebrafish_22m_COL121_2_2.fq.gz	fastq fastq	20381037402.0	157992538.0	GSM5965372 r2	0:108 1:150	A:5924617665;C:4061076664;G:4343030573;T:6022757961;N:29554539	108	150	5924617665	4061076664	4343030573	6022757961	29554539	SRX14566119	SRS12343117	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.39292	0.02429	0.89779	0.54052	108	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-22	Adult	Adult	Whole Organism	All anatomical structures
69097	69097	SRR19600347	SRX14566119	SRS12343117	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL121	GSM5965372	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL121	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5965372	GSM5965372: Micorwell seq datasets of Zebrafish 22m COL121; Danio rerio; RNA Seq	GSM5965372 r1	GSM5965372	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL121_3_1.fq.gz Zebrafish_22m_COL121_3_2.fq.gz	fastq fastq	12962573178.0	148995094.0	GSM5965372 r3	0:24 1:150	A:4392997024;C:2545208711;G:2555738892;T:3419806282;N:48822269	24	150	4392997024	2545208711	2555738892	3419806282	48822269	SRX14566119	SRS12343117	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.36239	0.0223	0.89079	0.54879	24	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-22	Adult	Adult	Whole Organism	All anatomical structures
69098	69098	SRR20220074	SRX14566119	SRS12343117	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL121	GSM5965372	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL121	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5965372	GSM5965372: Micorwell seq datasets of Zebrafish 22m COL121; Danio rerio; RNA Seq	GSM5965372 r1	GSM5965372	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL121_4_2.fq.gz Zebrafish_22m_COL121_4_1.fq.gz	fastq fastq	13992529638.0	160833674.0	GSM5965372 r4	0:24 1:150	A:4723750519;C:2745683390;G:2786342949;T:3701370605;N:35382175	24	150	4723750519	2745683390	2786342949	3701370605	35382175	SRX14566119	SRS12343117	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.37133	0.02324	0.8888	0.52811	24	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-22	Adult	Adult	Whole Organism	All anatomical structures
69099	69099	SRR18432298	SRX14566118	SRS12343116	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL100	GSM5965371	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL100	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5965371	GSM5965371: Micorwell seq datasets of Zebrafish 22m COL100; Danio rerio; RNA Seq	GSM5965371 r1	GSM5965371	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL100_1_2.fq.gz Zebrafish_22m_COL100_1_1.fq.gz	fastq fastq	5393265000.0	35955100.0	GSM5965371 r1	0:150 1:150	A:1595049513;C:979482166;G:1012478232;T:1804365746;N:1889343	150	150	1595049513	979482166	1012478232	1804365746	1889343	SRX14566118	SRS12343116	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.35087	0.01883	0.88805	0.41722	150	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-22	Adult	Adult	Whole Organism	All anatomical structures
69100	69100	SRR19574842	SRX14566118	SRS12343116	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL100	GSM5965371	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL100	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5965371	GSM5965371: Micorwell seq datasets of Zebrafish 22m COL100; Danio rerio; RNA Seq	GSM5965371 r1	GSM5965371	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL100_2_2.fq.gz Zebrafish_22m_COL100_2_1.fq.gz	fastq fastq	17121249198.0	132722862.0	GSM5965371 r2	0:108 1:150	A:5012468241;C:3427280964;G:3676770901;T:4980354879;N:24374213	108	150	5012468241	3427280964	3676770901	4980354879	24374213	SRX14566118	SRS12343116	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.40282	0.02005	0.91311	0.41316	108	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-22	Adult	Adult	Whole Organism	All anatomical structures
69101	69101	SRR19600346	SRX14566118	SRS12343116	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL100	GSM5965371	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL100	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5965371	GSM5965371: Micorwell seq datasets of Zebrafish 22m COL100; Danio rerio; RNA Seq	GSM5965371 r1	GSM5965371	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL100_3_1.fq.gz Zebrafish_22m_COL100_3_2.fq.gz	fastq fastq	10689663900.0	122869700.0	GSM5965371 r3	0:24 1:150	A:3601577071;C:2127212143;G:2148914414;T:2771385134;N:40575138	24	150	3601577071	2127212143	2148914414	2771385134	40575138	SRX14566118	SRS12343116	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.36642	0.01834	0.90709	0.41421	24	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-22	Adult	Adult	Whole Organism	All anatomical structures
69102	69102	SRR20220073	SRX14566118	SRS12343116	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL100	GSM5965371	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL100	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5965371	GSM5965371: Micorwell seq datasets of Zebrafish 22m COL100; Danio rerio; RNA Seq	GSM5965371 r1	GSM5965371	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL100_4_2.fq.gz Zebrafish_22m_COL100_4_1.fq.gz	fastq fastq	10839649638.0	124593674.0	GSM5965371 r4	0:24 1:150	A:3647953845;C:2155414977;G:2193427718;T:2815506032;N:27347066	24	150	3647953845	2155414977	2193427718	2815506032	27347066	SRX14566118	SRS12343116	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.37732	0.01892	0.90611	0.41495	24	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-22	Adult	Adult	Whole Organism	All anatomical structures
69103	69103	SRR18432299	SRX14566117	SRS12343115	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL99	GSM5965370	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL99	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5965370	GSM5965370: Micorwell seq datasets of Zebrafish 22m COL99; Danio rerio; RNA Seq	GSM5965370 r1	GSM5965370	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL99_1_1.fq.gz Zebrafish_22m_COL99_1_2.fq.gz	fastq fastq	7342361700.0	48949078.0	GSM5965370 r1	0:150 1:150	A:2167085889;C:1328709678;G:1371279362;T:2472729217;N:2557554	150	150	2167085889	1328709678	1371279362	2472729217	2557554	SRX14566117	SRS12343115	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.35218	0.02022	0.88172	0.40931	150	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-22	Adult	Adult	Whole Organism	All anatomical structures
69104	69104	SRR19574841	SRX14566117	SRS12343115	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL99	GSM5965370	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL99	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5965370	GSM5965370: Micorwell seq datasets of Zebrafish 22m COL99; Danio rerio; RNA Seq	GSM5965370 r1	GSM5965370	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL99_2_2.fq.gz Zebrafish_22m_COL99_2_1.fq.gz	fastq fastq	23158201260.0	179520940.0	GSM5965370 r2	0:108 1:150	A:6801877664;C:4592887625;G:4915083111;T:6815702760;N:32650100	108	150	6801877664	4592887625	4915083111	6815702760	32650100	SRX14566117	SRS12343115	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.39104	0.02058	0.91378	0.42997	150	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-22	Adult	Adult	Whole Organism	All anatomical structures
69105	69105	SRR19600345	SRX14566117	SRS12343115	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL99	GSM5965370	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL99	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5965370	GSM5965370: Micorwell seq datasets of Zebrafish 22m COL99; Danio rerio; RNA Seq	GSM5965370 r1	GSM5965370	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL99_3_1.fq.gz Zebrafish_22m_COL99_3_2.fq.gz	fastq fastq	14305689618.0	164433214.0	GSM5965370 r3	0:24 1:150	A:4861940513;C:2831334489;G:2853025415;T:3704990873;N:54398328	24	150	4861940513	2831334489	2853025415	3704990873	54398328	SRX14566117	SRS12343115	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.35904	0.01836	0.90471	0.43549	24	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-22	Adult	Adult	Whole Organism	All anatomical structures
69106	69106	SRR20220072	SRX14566117	SRS12343115	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL99	GSM5965370	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL99	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5965370	GSM5965370: Micorwell seq datasets of Zebrafish 22m COL99; Danio rerio; RNA Seq	GSM5965370 r1	GSM5965370	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL99_4_2.fq.gz Zebrafish_22m_COL99_4_1.fq.gz	fastq fastq	15260086752.0	175403296.0	GSM5965370 r4	0:24 1:150	A:5185321096;C:3015789376;G:3064259416;T:3956859513;N:37857351	24	150	5185321096	3015789376	3064259416	3956859513	37857351	SRX14566117	SRS12343115	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.36721	0.01828	0.90331	0.43099	24	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-22	Adult	Adult	Whole Organism	All anatomical structures
69107	69107	SRR18432300	SRX14566116	SRS12343114	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL98	GSM5965369	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL98	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5965369	GSM5965369: Micorwell seq datasets of Zebrafish 22m COL98; Danio rerio; RNA Seq	GSM5965369 r1	GSM5965369	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL98_1_2.fq.gz Zebrafish_22m_COL98_1_1.fq.gz	fastq fastq	5938444500.0	39589630.0	GSM5965369 r1	0:150 1:150	A:1758895503;C:1070256355;G:1106954199;T:2000229880;N:2108563	150	150	1758895503	1070256355	1106954199	2000229880	2108563	SRX14566116	SRS12343114	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.34396	0.02144	0.88732	0.42814	150	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-22	Adult	Adult	Whole Organism	All anatomical structures
69108	69108	SRR19574840	SRX14566116	SRS12343114	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL98	GSM5965369	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL98	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5965369	GSM5965369: Micorwell seq datasets of Zebrafish 22m COL98; Danio rerio; RNA Seq	GSM5965369 r1	GSM5965369	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL98_2_2.fq.gz Zebrafish_22m_COL98_2_1.fq.gz	fastq fastq	18950667342.0	146904398.0	GSM5965369 r2	0:108 1:150	A:5563615657;C:3754580615;G:4025718357;T:5579503919;N:27248794	108	150	5563615657	3754580615	4025718357	5579503919	27248794	SRX14566116	SRS12343114	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.38541	0.02055	0.91595	0.44038	108	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-22	Adult	Adult	Whole Organism	All anatomical structures
69109	69109	SRR19600344	SRX14566116	SRS12343114	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL98	GSM5965369	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL98	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5965369	GSM5965369: Micorwell seq datasets of Zebrafish 22m COL98; Danio rerio; RNA Seq	GSM5965369 r1	GSM5965369	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL98_3_2.fq.gz Zebrafish_22m_COL98_3_1.fq.gz	fastq fastq	11565622008.0	132938184.0	GSM5965369 r3	0:24 1:150	A:3931052782;C:2290541845;G:2311160387;T:2988933252;N:43933742	24	150	3931052782	2290541845	2311160387	2988933252	43933742	SRX14566116	SRS12343114	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.35787	0.01902	0.90554	0.44163	24	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-22	Adult	Adult	Whole Organism	All anatomical structures
69110	69110	SRR20220071	SRX14566116	SRS12343114	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL98	GSM5965369	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL98	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5965369	GSM5965369: Micorwell seq datasets of Zebrafish 22m COL98; Danio rerio; RNA Seq	GSM5965369 r1	GSM5965369	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL98_4_2.fq.gz Zebrafish_22m_COL98_4_1.fq.gz	fastq fastq	12798089412.0	147104476.0	GSM5965369 r4	0:24 1:150	A:4354231302;C:2522847485;G:2575887489;T:3314314332;N:30808804	24	150	4354231302	2522847485	2575887489	3314314332	30808804	SRX14566116	SRS12343114	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.36534	0.01997	0.90599	0.44153	24	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-22	Adult	Adult	Whole Organism	All anatomical structures
69111	69111	SRR18432301	SRX14566115	SRS12343113	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL29	GSM5965368	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL29	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5965368	GSM5965368: Micorwell seq datasets of Zebrafish 22m COL29; Danio rerio; RNA Seq	GSM5965368 r1	GSM5965368	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL29_1_2.fq.gz Zebrafish_22m_COL29_1_1.fq.gz	fastq fastq	7581777300.0	50545182.0	GSM5965368 r1	0:150 1:150	A:2250106505;C:1381731283;G:1419439772;T:2527769280;N:2730460	150	150	2250106505	1381731283	1419439772	2527769280	2730460	SRX14566115	SRS12343113	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.36765	0.01494	0.90729	0.35288	150	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-22	Adult	Adult	Whole Organism	All anatomical structures
69112	69112	SRR19368203	SRX14566115	SRS12343113	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL29	GSM5965368	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL29	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5965368	GSM5965368: Micorwell seq datasets of Zebrafish 22m COL29; Danio rerio; RNA Seq	GSM5965368 r1	GSM5965368	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL29_2_2.fq.gz Zebrafish_22m_COL29_2_1.fq.gz	fastq fastq	24706758540.0	191525260.0	GSM5965368 r2	0:108 1:150	A:7243835856;C:4912810904;G:5266791629;T:7247039456;N:36280695	108	150	7243835856	4912810904	5266791629	7247039456	36280695	SRX14566115	SRS12343113	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.41806	0.0146	0.93091	0.33332	108	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-22	Adult	Adult	Whole Organism	All anatomical structures
69113	69113	SRR19600343	SRX14566115	SRS12343113	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL29	GSM5965368	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL29	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5965368	GSM5965368: Micorwell seq datasets of Zebrafish 22m COL29; Danio rerio; RNA Seq	GSM5965368 r1	GSM5965368	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL29_3_2.fq.gz Zebrafish_22m_COL29_3_1.fq.gz	fastq fastq	15303263112.0	175899576.0	GSM5965368 r3	0:24 1:150	A:5167675905;C:3018555240;G:3029922145;T:4028679196;N:58430626	24	150	5167675905	3018555240	3029922145	4028679196	58430626	SRX14566115	SRS12343113	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.38632	0.01455	0.92322	0.34744	24	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-22	Adult	Adult	Whole Organism	All anatomical structures
69114	69114	SRR20230006	SRX14566115	SRS12343113	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL29	GSM5965368	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL29	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5965368	GSM5965368: Micorwell seq datasets of Zebrafish 22m COL29; Danio rerio; RNA Seq	GSM5965368 r1	GSM5965368	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL29_4_2.fq.gz Zebrafish_22m_COL29_4_1.fq.gz	fastq fastq	17069362416.0	196199568.0	GSM5965368 r4	0:24 1:150	A:5757405783;C:3368033997;G:3400394688;T:4500190805;N:43337143	24	150	5757405783	3368033997	3400394688	4500190805	43337143	SRX14566115	SRS12343113	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.3939	0.01427	0.92287	0.33699	24	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-22	Adult	Adult	Whole Organism	All anatomical structures
69115	69115	SRR18432302	SRX14566114	SRS12343112	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL28	GSM5965367	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL28	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5965367	GSM5965367: Micorwell seq datasets of Zebrafish 22m COL28; Danio rerio; RNA Seq	GSM5965367 r1	GSM5965367	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL28_1_1.fq.gz Zebrafish_22m_COL28_1_2.fq.gz	fastq fastq	7826951700.0	52179678.0	GSM5965367 r1	0:150 1:150	A:2323409101;C:1429475496;G:1471378966;T:2599893921;N:2794216	150	150	2323409101	1429475496	1471378966	2599893921	2794216	SRX14566114	SRS12343112	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.37337	0.01545	0.90461	0.34521	150	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-22	Adult	Adult	Whole Organism	All anatomical structures
69116	69116	SRR19368202	SRX14566114	SRS12343112	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL28	GSM5965367	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL28	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5965367	GSM5965367: Micorwell seq datasets of Zebrafish 22m COL28; Danio rerio; RNA Seq	GSM5965367 r1	GSM5965367	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL28_2_2.fq.gz Zebrafish_22m_COL28_2_1.fq.gz	fastq fastq	25820087106.0	200155714.0	GSM5965367 r2	0:108 1:150	A:7560770671;C:5174347897;G:5565098094;T:7482492804;N:37377640	108	150	7560770671	5174347897	5565098094	7482492804	37377640	SRX14566114	SRS12343112	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.43399	0.01555	0.92811	0.33152	108	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-22	Adult	Adult	Whole Organism	All anatomical structures
69117	69117	SRR19600342	SRX14566114	SRS12343112	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL28	GSM5965367	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL28	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5965367	GSM5965367: Micorwell seq datasets of Zebrafish 22m COL28; Danio rerio; RNA Seq	GSM5965367 r1	GSM5965367	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL28_3_1.fq.gz Zebrafish_22m_COL28_3_2.fq.gz	fastq fastq	16283222934.0	187163482.0	GSM5965367 r3	0:24 1:150	A:5493743190;C:3233659251;G:3255765506;T:4237980273;N:62074714	24	150	5493743190	3233659251	3255765506	4237980273	62074714	SRX14566114	SRS12343112	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.39151	0.01367	0.92334	0.33648	24	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-22	Adult	Adult	Whole Organism	All anatomical structures
69118	69118	SRR20230005	SRX14566114	SRS12343112	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL28	GSM5965367	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL28	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5965367	GSM5965367: Micorwell seq datasets of Zebrafish 22m COL28; Danio rerio; RNA Seq	GSM5965367 r1	GSM5965367	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL28_4_2.fq.gz Zebrafish_22m_COL28_4_1.fq.gz	fastq fastq	16754354556.0	192578788.0	GSM5965367 r4	0:24 1:150	A:5619677705;C:3335915497;G:3373736074;T:4382199390;N:42825890	24	150	5619677705	3335915497	3373736074	4382199390	42825890	SRX14566114	SRS12343112	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.40455	0.01479	0.92149	0.33527	24	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-22	Adult	Adult	Whole Organism	All anatomical structures
69119	69119	SRR18432303	SRX14566113	SRS12343111	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL26	GSM5965366	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL26	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5965366	GSM5965366: Micorwell seq datasets of Zebrafish 22m COL26; Danio rerio; RNA Seq	GSM5965366 r1	GSM5965366	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL26_1_2.fq.gz Zebrafish_22m_COL26_1_1.fq.gz	fastq fastq	8146547400.0	54310316.0	GSM5965366 r1	0:150 1:150	A:2416747711;C:1494300256;G:1538832328;T:2693808669;N:2858436	150	150	2416747711	1494300256	1538832328	2693808669	2858436	SRX14566113	SRS12343111	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.35353	0.01597	0.91202	0.32572	150	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-22	Adult	Adult	Whole Organism	All anatomical structures
69120	69120	SRR19368201	SRX14566113	SRS12343111	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL26	GSM5965366	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL26	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5965366	GSM5965366: Micorwell seq datasets of Zebrafish 22m COL26; Danio rerio; RNA Seq	GSM5965366 r1	GSM5965366	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL26_2_2.fq.gz Zebrafish_22m_COL26_2_1.fq.gz	fastq fastq	26990221596.0	209226524.0	GSM5965366 r2	0:108 1:150	A:7967360290;C:5377249138;G:5762633566;T:7844513332;N:38465270	108	150	7967360290	5377249138	5762633566	7844513332	38465270	SRX14566113	SRS12343111	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.39923	0.01661	0.93728	0.31437	108	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-22	Adult	Adult	Whole Organism	All anatomical structures
69121	69121	SRR19600341	SRX14566113	SRS12343111	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL26	GSM5965366	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL26	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5965366	GSM5965366: Micorwell seq datasets of Zebrafish 22m COL26; Danio rerio; RNA Seq	GSM5965366 r1	GSM5965366	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL26_3_2.fq.gz Zebrafish_22m_COL26_3_1.fq.gz	fastq fastq	16738636962.0	192398126.0	GSM5965366 r3	0:24 1:150	A:5740314808;C:3286765181;G:3307994492;T:4339946982;N:63615499	24	150	5740314808	3286765181	3307994492	4339946982	63615499	SRX14566113	SRS12343111	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.35598	0.01478	0.93332	0.30927	24	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-22	Adult	Adult	Whole Organism	All anatomical structures
69122	69122	SRR20230004	SRX14566113	SRS12343111	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL26	GSM5965366	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL26	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5965366	GSM5965366: Micorwell seq datasets of Zebrafish 22m COL26; Danio rerio; RNA Seq	GSM5965366 r1	GSM5965366	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL26_4_1.fq.gz Zebrafish_22m_COL26_4_2.fq.gz	fastq fastq	18291233394.0	210244062.0	GSM5965366 r4	0:24 1:150	A:6252289788;C:3596253868;G:3645465304;T:4750348347;N:46876087	24	150	6252289788	3596253868	3645465304	4750348347	46876087	SRX14566113	SRS12343111	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.36964	0.01527	0.93016	0.314	24	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-22	Adult	Adult	Whole Organism	All anatomical structures
69123	69123	SRR18432304	SRX14566112	SRS12343110	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL25	GSM5965365	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL25	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5965365	GSM5965365: Micorwell seq datasets of Zebrafish 22m COL25; Danio rerio; RNA Seq	GSM5965365 r1	GSM5965365	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL25_1_2.fq.gz Zebrafish_22m_COL25_1_1.fq.gz	fastq fastq	7386895500.0	49245970.0	GSM5965365 r1	0:150 1:150	A:2188943122;C:1352466099;G:1391208556;T:2451623671;N:2654052	150	150	2188943122	1352466099	1391208556	2451623671	2654052	SRX14566112	SRS12343110	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.34829	0.01702	0.91011	0.34696	150	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-22	Adult	Adult	Whole Organism	All anatomical structures
69124	69124	SRR19368200	SRX14566112	SRS12343110	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL25	GSM5965365	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL25	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5965365	GSM5965365: Micorwell seq datasets of Zebrafish 22m COL25; Danio rerio; RNA Seq	GSM5965365 r1	GSM5965365	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL25_2_1.fq.gz Zebrafish_22m_COL25_2_2.fq.gz	fastq fastq	24439389786.0	189452634.0	GSM5965365 r2	0:108 1:150	A:7206398545;C:4850830421;G:5202414831;T:7143901244;N:35844745	108	150	7206398545	4850830421	5202414831	7143901244	35844745	SRX14566112	SRS12343110	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.39244	0.01665	0.93561	0.33395	108	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-22	Adult	Adult	Whole Organism	All anatomical structures
69125	69125	SRR19600340	SRX14566112	SRS12343110	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL25	GSM5965365	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL25	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5965365	GSM5965365: Micorwell seq datasets of Zebrafish 22m COL25; Danio rerio; RNA Seq	GSM5965365 r1	GSM5965365	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL25_3_1.fq.gz Zebrafish_22m_COL25_3_2.fq.gz	fastq fastq	14886524934.0	171109482.0	GSM5965365 r3	0:24 1:150	A:5054066629;C:2935627519;G:2951049142;T:3888081486;N:57700158	24	150	5054066629	2935627519	2951049142	3888081486	57700158	SRX14566112	SRS12343110	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.35663	0.01562	0.92847	0.32068	24	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-22	Adult	Adult	Whole Organism	All anatomical structures
69126	69126	SRR20230003	SRX14566112	SRS12343110	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL25	GSM5965365	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL25	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5965365	GSM5965365: Micorwell seq datasets of Zebrafish 22m COL25; Danio rerio; RNA Seq	GSM5965365 r1	GSM5965365	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL25_4_1.fq.gz Zebrafish_22m_COL25_4_2.fq.gz	fastq fastq	15319397610.0	176085030.0	GSM5965365 r4	0:24 1:150	A:5196794440;C:3025206059;G:3053061397;T:4004012980;N:40322734	24	150	5196794440	3025206059	3053061397	4004012980	40322734	SRX14566112	SRS12343110	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.36743	0.01643	0.92717	0.33246	24	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-22	Adult	Adult	Whole Organism	All anatomical structures
69127	69127	SRR18324407	SRX14462008	SRS12265561	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL96	GSM5952449	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL96	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5952449	GSM5952449: Micorwell seq datasets of Zebrafish 22m COL96; Danio rerio; RNA Seq	GSM5952449 r1	GSM5952449	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL96_1_1.fq.gz Zebrafish_22m_COL96_1_2.fq.gz	fastq fastq	7585326300.0	50568842.0	GSM5952449 r1	0:150 1:150	A:2222934338;C:1372003512;G:1421274760;T:2566437144;N:2676546	150	150	2222934338	1372003512	1421274760	2566437144	2676546	SRX14462008	SRS12265561	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.36472	0.02138	0.87903	0.40976	150	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-14	Adult	Adult	Whole Organism	All anatomical structures
69128	69128	SRR19574838	SRX14462008	SRS12265561	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL96	GSM5952449	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL96	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5952449	GSM5952449: Micorwell seq datasets of Zebrafish 22m COL96; Danio rerio; RNA Seq	GSM5952449 r1	GSM5952449	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL96_2_1.fq.gz Zebrafish_22m_COL96_2_2.fq.gz	fastq fastq	23678760378.0	183556282.0	GSM5952449 r2	0:108 1:150	A:6835986863;C:4754567504;G:5117713497;T:6935921626;N:34570888	108	150	6835986863	4754567504	5117713497	6935921626	34570888	SRX14462008	SRS12265561	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.42365	0.02178	0.90808	0.42539	108	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-14	Adult	Adult	Whole Organism	All anatomical structures
69129	69129	SRR19600334	SRX14462008	SRS12265561	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL96	GSM5952449	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL96	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5952449	GSM5952449: Micorwell seq datasets of Zebrafish 22m COL96; Danio rerio; RNA Seq	GSM5952449 r1	GSM5952449	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL96_3_1.fq.gz Zebrafish_22m_COL96_3_2.fq.gz	fastq fastq	14446071774.0	166046802.0	GSM5952449 r3	0:24 1:150	A:4762589459;C:2903954370;G:2949658398;T:3775118427;N:54751120	24	150	4762589459	2903954370	2949658398	3775118427	54751120	SRX14462008	SRS12265561	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.39057	0.01981	0.89706	0.42859	24	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-14	Adult	Adult	Whole Organism	All anatomical structures
69130	69130	SRR20220069	SRX14462008	SRS12265561	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL96	GSM5952449	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL96	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5952449	GSM5952449: Micorwell seq datasets of Zebrafish 22m COL96; Danio rerio; RNA Seq	GSM5952449 r1	GSM5952449	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL96_4_1.fq.gz Zebrafish_22m_COL96_4_2.fq.gz	fastq fastq	16164846036.0	185802828.0	GSM5952449 r4	0:24 1:150	A:5323547808;C:3234690319;G:3319094681;T:4250240266;N:37272962	24	150	5323547808	3234690319	3319094681	4250240266	37272962	SRX14462008	SRS12265561	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.39781	0.02136	0.89542	0.4178	24	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-14	Adult	Adult	Whole Organism	All anatomical structures
69131	69131	SRR18324408	SRX14462007	SRS12265560	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL97	GSM5952450	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL97	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5952450	GSM5952450: Micorwell seq datasets of Zebrafish 22m COL97; Danio rerio; RNA Seq	GSM5952450 r1	GSM5952450	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL97_1_1.fq.gz Zebrafish_22m_COL97_1_2.fq.gz	fastq fastq	7247019000.0	48313460.0	GSM5952450 r1	0:150 1:150	A:2121610220;C:1321764255;G:1366953984;T:2434135976;N:2554565	150	150	2121610220	1321764255	1366953984	2434135976	2554565	SRX14462007	SRS12265560	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.36832	0.0208	0.87939	0.42824	150	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-14	Adult	Adult	Whole Organism	All anatomical structures
69132	69132	SRR19574839	SRX14462007	SRS12265560	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL97	GSM5952450	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL97	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5952450	GSM5952450: Micorwell seq datasets of Zebrafish 22m COL97; Danio rerio; RNA Seq	GSM5952450 r1	GSM5952450	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL97_2_1.fq.gz Zebrafish_22m_COL97_2_2.fq.gz	fastq fastq	24817186410.0	192381290.0	GSM5952450 r2	0:108 1:150	A:7187812878;C:4969274402;G:5339518780;T:7284148860;N:36431490	108	150	7187812878	4969274402	5339518780	7284148860	36431490	SRX14462007	SRS12265560	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.4258	0.02202	0.90978	0.40966	108	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-14	Adult	Adult	Whole Organism	All anatomical structures
69133	69133	SRR19600335	SRX14462007	SRS12265560	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL97	GSM5952450	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL97	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5952450	GSM5952450: Micorwell seq datasets of Zebrafish 22m COL97; Danio rerio; RNA Seq	GSM5952450 r1	GSM5952450	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL97_3_1.fq.gz Zebrafish_22m_COL97_3_2.fq.gz	fastq fastq	16274464122.0	187062806.0	GSM5952450 r3	0:24 1:150	A:5528818880;C:3201044823;G:3221013048;T:4262149376;N:61437995	24	150	5528818880	3201044823	3221013048	4262149376	61437995	SRX14462007	SRS12265560	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.37883	0.01979	0.90483	0.42056	24	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-14	Adult	Adult	Whole Organism	All anatomical structures
69134	69134	SRR20220070	SRX14462007	SRS12265560	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL97	GSM5952450	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL97	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5952450	GSM5952450: Micorwell seq datasets of Zebrafish 22m COL97; Danio rerio; RNA Seq	GSM5952450 r1	GSM5952450	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL97_4_1.fq.gz Zebrafish_22m_COL97_4_2.fq.gz	fastq fastq	17053653000.0	196019000.0	GSM5952450 r4	0:24 1:150	A:5744300088;C:3373489093;G:3418764682;T:4475792525;N:41306612	24	150	5744300088	3373489093	3418764682	4475792525	41306612	SRX14462007	SRS12265560	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.39497	0.02031	0.90327	0.41726	24	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-14	Adult	Adult	Whole Organism	All anatomical structures
69135	69135	SRR18324409	SRX14462006	SRS12265559	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL85	GSM5952438	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL85	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5952438	GSM5952438: Micorwell seq datasets of Zebrafish 22m COL85; Danio rerio; RNA Seq	GSM5952438 r1	GSM5952438	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL85_1_1.fq.gz Zebrafish_22m_COL85_1_2.fq.gz	fastq fastq	6413133900.0	42754226.0	GSM5952438 r1	0:150 1:150	A:1897367251;C:1147604565;G:1183651417;T:2182187144;N:2323523	150	150	1897367251	1147604565	1183651417	2182187144	2323523	SRX14462006	SRS12265559	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.34444	0.01887	0.87539	0.5329	150	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-14	Adult	Adult	Whole Organism	All anatomical structures
69136	69136	SRR19574827	SRX14462006	SRS12265559	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL85	GSM5952438	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL85	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5952438	GSM5952438: Micorwell seq datasets of Zebrafish 22m COL85; Danio rerio; RNA Seq	GSM5952438 r1	GSM5952438	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL85_2_2.fq.gz Zebrafish_22m_COL85_2_1.fq.gz	fastq fastq	20982367806.0	162654014.0	GSM5952438 r2	0:108 1:150	A:6145740316;C:4134190174;G:4430830902;T:6241336193;N:30270221	108	150	6145740316	4134190174	4430830902	6241336193	30270221	SRX14462006	SRS12265559	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.39587	0.02024	0.90368	0.52839	108	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-14	Adult	Adult	Whole Organism	All anatomical structures
69137	69137	SRR19600323	SRX14462006	SRS12265559	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL85	GSM5952438	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL85	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5952438	GSM5952438: Micorwell seq datasets of Zebrafish 22m COL85; Danio rerio; RNA Seq	GSM5952438 r1	GSM5952438	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL85_3_2.fq.gz Zebrafish_22m_COL85_3_1.fq.gz	fastq fastq	13536198804.0	155588492.0	GSM5952438 r3	0:24 1:150	A:4632670200;C:2642882787;G:2645581540;T:3563693787;N:51370490	24	150	4632670200	2642882787	2645581540	3563693787	51370490	SRX14462006	SRS12265559	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.36174	0.01851	0.89613	0.53686	24	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-14	Adult	Adult	Whole Organism	All anatomical structures
69138	69138	SRR20220058	SRX14462006	SRS12265559	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL85	GSM5952438	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL85	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5952438	GSM5952438: Micorwell seq datasets of Zebrafish 22m COL85; Danio rerio; RNA Seq	GSM5952438 r1	GSM5952438	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL85_4_2.fq.gz Zebrafish_22m_COL85_4_1.fq.gz	fastq fastq	13825697916.0	158916068.0	GSM5952438 r4	0:24 1:150	A:4698178869;C:2709915600;G:2736517029;T:3646324015;N:34762403	24	150	4698178869	2709915600	2736517029	3646324015	34762403	SRX14462006	SRS12265559	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.37421	0.01894	0.89467	0.50407	24	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-14	Adult	Adult	Whole Organism	All anatomical structures
69139	69139	SRR18324410	SRX14462005	SRS12265558	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL84	GSM5952437	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL84	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5952437	GSM5952437: Micorwell seq datasets of Zebrafish 22m COL84; Danio rerio; RNA Seq	GSM5952437 r1	GSM5952437	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL84_1_1.fq.gz Zebrafish_22m_COL84_1_2.fq.gz	fastq fastq	6338504100.0	42256694.0	GSM5952437 r1	0:150 1:150	A:1867231220;C:1134885370;G:1175142881;T:2158934330;N:2310299	150	150	1867231220	1134885370	1175142881	2158934330	2310299	SRX14462005	SRS12265558	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.33913	0.03324	0.8574	0.52545	150	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-14	Adult	Adult	Whole Organism	All anatomical structures
69140	69140	SRR19574826	SRX14462005	SRS12265558	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL84	GSM5952437	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL84	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5952437	GSM5952437: Micorwell seq datasets of Zebrafish 22m COL84; Danio rerio; RNA Seq	GSM5952437 r1	GSM5952437	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL84_2_1.fq.gz Zebrafish_22m_COL84_2_2.fq.gz	fastq fastq	20819585286.0	161392134.0	GSM5952437 r2	0:108 1:150	A:6098775824;C:4097294841;G:4406784428;T:6186205144;N:30525049	108	150	6098775824	4097294841	4406784428	6186205144	30525049	SRX14462005	SRS12265558	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.38186	0.03663	0.88887	0.52697	108	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-14	Adult	Adult	Whole Organism	All anatomical structures
69141	69141	SRR19600322	SRX14462005	SRS12265558	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL84	GSM5952437	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL84	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5952437	GSM5952437: Micorwell seq datasets of Zebrafish 22m COL84; Danio rerio; RNA Seq	GSM5952437 r1	GSM5952437	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL84_3_1.fq.gz Zebrafish_22m_COL84_3_2.fq.gz	fastq fastq	12734377920.0	146372160.0	GSM5952437 r3	0:24 1:150	A:4285909304;C:2507360964;G:2534958626;T:3357178762;N:48970264	24	150	4285909304	2507360964	2534958626	3357178762	48970264	SRX14462005	SRS12265558	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.35827	0.0332	0.87545	0.50564	24	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-14	Adult	Adult	Whole Organism	All anatomical structures
69142	69142	SRR20220057	SRX14462005	SRS12265558	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL84	GSM5952437	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL84	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5952437	GSM5952437: Micorwell seq datasets of Zebrafish 22m COL84; Danio rerio; RNA Seq	GSM5952437 r1	GSM5952437	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL84_4_1.fq.gz Zebrafish_22m_COL84_4_2.fq.gz	fastq fastq	12215026722.0	140402606.0	GSM5952437 r4	0:24 1:150	A:4110444308;C:2397992865;G:2445036392;T:3230623394;N:30929763	24	150	4110444308	2397992865	2445036392	3230623394	30929763	SRX14462005	SRS12265558	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.36695	0.03391	0.87584	0.52516	24	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-14	Adult	Adult	Whole Organism	All anatomical structures
69143	69143	SRR18324411	SRX14462004	SRS12265556	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL95	GSM5952448	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL95	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5952448	GSM5952448: Micorwell seq datasets of Zebrafish 22m COL95; Danio rerio; RNA Seq	GSM5952448 r1	GSM5952448	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL95_1_1.fq.gz Zebrafish_22m_COL95_1_2.fq.gz	fastq fastq	7693641600.0	51290944.0	GSM5952448 r1	0:150 1:150	A:2272261425;C:1389032623;G:1435188830;T:2594395740;N:2762982	150	150	2272261425	1389032623	1435188830	2594395740	2762982	SRX14462004	SRS12265556	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.35258	0.02004	0.88428	0.44102	150	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-14	Adult	Adult	Whole Organism	All anatomical structures
69144	69144	SRR19574837	SRX14462004	SRS12265556	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL95	GSM5952448	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL95	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5952448	GSM5952448: Micorwell seq datasets of Zebrafish 22m COL95; Danio rerio; RNA Seq	GSM5952448 r1	GSM5952448	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL95_2_1.fq.gz Zebrafish_22m_COL95_2_2.fq.gz	fastq fastq	24591374748.0	190630812.0	GSM5952448 r2	0:108 1:150	A:7205233879;C:4874896710;G:5224131481;T:7251767536;N:35345142	108	150	7205233879	4874896710	5224131481	7251767536	35345142	SRX14462004	SRS12265556	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.40403	0.02102	0.91224	0.43452	108	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-14	Adult	Adult	Whole Organism	All anatomical structures
69145	69145	SRR19600333	SRX14462004	SRS12265556	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL95	GSM5952448	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL95	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5952448	GSM5952448: Micorwell seq datasets of Zebrafish 22m COL95; Danio rerio; RNA Seq	GSM5952448 r1	GSM5952448	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL95_3_1.fq.gz Zebrafish_22m_COL95_3_2.fq.gz	fastq fastq	15781039098.0	181391254.0	GSM5952448 r3	0:24 1:150	A:5378282765;C:3100317928;G:3116256783;T:4125933839;N:60247783	24	150	5378282765	3100317928	3116256783	4125933839	60247783	SRX14462004	SRS12265556	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.36782	0.01849	0.90274	0.44083	24	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-14	Adult	Adult	Whole Organism	All anatomical structures
69146	69146	SRR20220068	SRX14462004	SRS12265556	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL95	GSM5952448	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL95	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5952448	GSM5952448: Micorwell seq datasets of Zebrafish 22m COL95; Danio rerio; RNA Seq	GSM5952448 r1	GSM5952448	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL95_4_1.fq.gz Zebrafish_22m_COL95_4_2.fq.gz	fastq fastq	16836509526.0	193523098.0	GSM5952448 r4	0:24 1:150	A:5726465059;C:3309296081;G:3359110449;T:4398601627;N:43036310	24	150	5726465059	3309296081	3359110449	4398601627	43036310	SRX14462004	SRS12265556	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.37664	0.01944	0.90394	0.44126	24	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-14	Adult	Adult	Whole Organism	All anatomical structures
69147	69147	SRR18324412	SRX14462003	SRS12265555	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL94	GSM5952447	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL94	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5952447	GSM5952447: Micorwell seq datasets of Zebrafish 22m COL94; Danio rerio; RNA Seq	GSM5952447 r1	GSM5952447	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL94_1_1.fq.gz Zebrafish_22m_COL94_1_2.fq.gz	fastq fastq	6437998800.0	42919992.0	GSM5952447 r1	0:150 1:150	A:1887734041;C:1174667392;G:1212310918;T:2160980327;N:2306122	150	150	1887734041	1174667392	1212310918	2160980327	2306122	SRX14462003	SRS12265555	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.36631	0.02239	0.87866	0.42174	150	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-14	Adult	Adult	Whole Organism	All anatomical structures
69148	69148	SRR19574836	SRX14462003	SRS12265555	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL94	GSM5952447	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL94	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5952447	GSM5952447: Micorwell seq datasets of Zebrafish 22m COL94; Danio rerio; RNA Seq	GSM5952447 r1	GSM5952447	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL94_2_1.fq.gz Zebrafish_22m_COL94_2_2.fq.gz	fastq fastq	22167919860.0	171844340.0	GSM5952447 r2	0:108 1:150	A:6436679704;C:4437403667;G:4762582013;T:6498826164;N:32428312	108	150	6436679704	4437403667	4762582013	6498826164	32428312	SRX14462003	SRS12265555	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.41932	0.02323	0.90761	0.41207	150	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-14	Adult	Adult	Whole Organism	All anatomical structures
69149	69149	SRR19600332	SRX14462003	SRS12265555	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL94	GSM5952447	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL94	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5952447	GSM5952447: Micorwell seq datasets of Zebrafish 22m COL94; Danio rerio; RNA Seq	GSM5952447 r1	GSM5952447	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL94_3_1.fq.gz Zebrafish_22m_COL94_3_2.fq.gz	fastq fastq	14411764194.0	165652462.0	GSM5952447 r3	0:24 1:150	A:4866084703;C:2862523421;G:2873575717;T:3754781896;N:54798457	24	150	4866084703	2862523421	2873575717	3754781896	54798457	SRX14462003	SRS12265555	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.3776	0.02056	0.90116	0.414	24	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-14	Adult	Adult	Whole Organism	All anatomical structures
69150	69150	SRR20220067	SRX14462003	SRS12265555	SRP363983	PRJNA816047	Mapping the zebrafish developmental and aging atlas by single cell mRNA seq	GSE198571	Transcriptome Analysis	Single cell mRNA sequencing scRNA seq technologies are reshaping current cell type classification system. In previous studies we constructed the Mouse Cell Atlas MCA and Human Cell Landscape HCL to catalog all cell types by collecting scRNA seq data. Howerver the systematic study for organism level dynamic changes of cellular states across zebrafish life span are still lacking. Here we constructed the zebrafish cell Landscape covering different development periods using Microwell seq protocol. The zebrafish cell landscape provides a valuable resource for studying cross sepciess development maturation and aging. Overall design: Over 452 878 cells derived from zebrafish whole body single cell dissociation and profiling at the larval stage 21 day 3 replicates and 10 fish for each replicate and adult 22 month 6 replicates 1 fish for each replicate.	parent bioproject:PRJNA817101	pubmed:35929025	Micorwell seq datasets of Zebrafish 22m COL94	GSM5952447	source name:Zebrafish 22m sample1\|strain:AB\|age:22 month\|tissue:whole organism	Micorwell seq datasets of Zebrafish 22m COL94	Base call files were performed with Illumina bcl2fastq. Sequenced reads were trimmed for adaptor sequences. Then reads in bam files were tagged with the cell and molecular UMI barcode sequences using Drop seq tools 1.12. The reads quality under 10 were removed. For raw file 1 in each COL cellbarcode: in read1 the bases 1 6 22 27 43 48 are merged 18bp; UMI: in read1 the bases 49 54 6bp. For raw file 2 5 in each COL cellbarcode: in read1 the bases 1 6 7 12 13 18 are merged 18bp; UMI: in read1 the bases 19 24 6bp. scRNA seq reads were aligned to the Danio rerio GRCz11 genome assembly using STAR version 2.5.2a with default configurations. Next merge the STAR alignment tagged bam SAM to recover cell/molecular barcodes and the reads are annotated with exon tags. Last we demultiplexed all cell barcodes taken into consideration for the analysis from the exon tagged bam files to get a digital expression matrix DGE based on UMI counts. The cell barcode is tagged with XC the UMI is tagged with XM and the gene is tagged with GE. Assembly: Danio rerio GRCz11 Supplementary files format and content: Tab delimited text files of digital expression matrix DGE based on raw UMI counts with genes as rows and cells as columns.	Zebrafish 22m sample1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	strain:AB\|age:22 month\|tissue:whole organism	GSM5952447	GSM5952447: Micorwell seq datasets of Zebrafish 22m COL94; Danio rerio; RNA Seq	GSM5952447 r1	GSM5952447	1	Whole body single cell dissociation and lysate Library preparations were performed with the Microwell seq protocol	RNA-Seq	TRANSCRIPTOMIC	cDNA	SINGLE	DNBSEQ	DNBSEQ-T7	SRP363983	Zebrafish_22m_COL94_4_1.fq.gz Zebrafish_22m_COL94_4_2.fq.gz	fastq fastq	13331610996.0	153236908.0	GSM5952447 r4	0:24 1:150	A:4477401580;C:2653158757;G:2685291945;T:3482036534;N:33722180	24	150	4477401580	2653158757	2685291945	3482036534	33722180	SRX14462003	SRS12265555	SRA1461257	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	Zhejiang University School of Medicine, Center for Stem Cell and Regenerative Medicine	1	0.39161	0.02171	0.89846	0.40245	24	B	usable mapping rate	bgi	bgi	unknown	cdna_unspecified	unknown	sc	single_cell_plate	microwellseq	China	2022-03-14	Adult	Adult	Whole Organism	All anatomical structures

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CREATE TABLE run_metadata("run.accession" VARCHAR, "experiment.accession" VARCHAR, "sample.accession" VARCHAR, "study.accession" VARCHAR, bioproject VARCHAR, "study.title" VARCHAR, "study.alias" VARCHAR, "study.type" VARCHAR, "study.abstract" VARCHAR, "study.attributes" VARCHAR, "study.PMIDs" VARCHAR, "sample.description" VARCHAR, "sample.title" VARCHAR, "sample.alias" VARCHAR, "sample.centername" VARCHAR, "sample.attributes" VARCHAR, "GEOsample.title" VARCHAR, "GEOsample.dataprocessing" VARCHAR, "GEOsample.source" VARCHAR, "GEOsample.treatmentprotocol" VARCHAR, "GEOsample.extractprotocol" VARCHAR, "GEOsample.growthprotocol" VARCHAR, "GEOsample.characteristics" VARCHAR, "GEOsample.accession" VARCHAR, "experiment.title" VARCHAR, "experiment.alias" VARCHAR, "experiment.library_name" VARCHAR, "experiment.design_description" VARCHAR, "experiment.library_construction_protocol" VARCHAR, "experiment.attributes" VARCHAR, "experiment.library_strategy" VARCHAR, "experiment.library_source" VARCHAR, "experiment.library_selection" VARCHAR, "experiment.library_layout" VARCHAR, "experiment.platform" VARCHAR, "experiment.instrument_model" VARCHAR, "experiment.spot_descriptor" VARCHAR, "experiment.study_ref" VARCHAR, "run.title" VARCHAR, "run.attributes" VARCHAR, "run.filename" VARCHAR, "run.semantic_name" VARCHAR, "run.total_bases" DOUBLE, "run.total_spots" DOUBLE, "run.alias" VARCHAR, "run.read_lengths" VARCHAR, "run.base_counts" VARCHAR, "run.r1_length" BIGINT, "run.r2_length" BIGINT, "run.r3_length" BIGINT, "run.r4_length" BIGINT, "run.Acount" BIGINT, "run.Ccount" BIGINT, "run.Gcount" BIGINT, "run.Tcount" BIGINT, "run.Ncount" BIGINT, "run.experiment" VARCHAR, "run.pool_member" VARCHAR, "submission.accession" VARCHAR, "submission.srasource" VARCHAR, "submission.bioprojectsource" VARCHAR, "seqdetective.n_mates" BIGINT, "seqdetective.mapping_rate.mate1" DOUBLE, "seqdetective.mapping_rate.mate2" DOUBLE, "seqdetective.nofeature_rate.mate1" DOUBLE, "seqdetective.nofeature_rate.mate2" DOUBLE, "seqdetective.sparsity.mate1" DOUBLE, "seqdetective.sparsity.mate2" DOUBLE, "seqdetective.pos_strand_rate.mate1" DOUBLE, "seqdetective.pos_strand_rate.mate2" DOUBLE, "seqdetective.readlen.mate1" BIGINT, "seqdetective.readlen.mate2" BIGINT, "seqdetective.judgement.mate1" VARCHAR, "seqdetective.judgement.mate2" VARCHAR, "seqdetective.judgement.reason" VARCHAR, platform_family VARCHAR, instrument_generation VARCHAR, read_bias VARCHAR, selection_class VARCHAR, prep_kit VARCHAR, sc_or_bulk VARCHAR, tech_class VARCHAR, technology VARCHAR, tech_variant VARCHAR, "submission.bioprojectsource.country" VARCHAR, earliest_date DATE, devstage_curation VARCHAR, devstage_curation_coarse VARCHAR, tissue_curation VARCHAR, tissue_curation_coarse VARCHAR);;
CREATE INDEX idx_run_bioproject ON run_metadata(bioproject);;
CREATE INDEX idx_run_run_accession ON run_metadata("run.accession");;